Detailed view for GL50803_3985

Basic information

TDR Targets ID: 809277
Giardia lamblia, tRNA/rRNA cytosine-C5-methylase
Source Database / ID:  GiardiaDB  

pI: 8.655 | Length (AA): 458 | MW (Da): 50518 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG1

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF01189   16S rRNA methyltransferase RsmB/F

Gene Ontology

Mouse over links to read term descriptions.
GO:0008168   methyltransferase activity  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 5 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
2 107 3d3b (A) 6 120 8.00 0.000046 0.08 0.261741 -0.56
2 86 3r2c (A) 4 100 12.00 0.044 0.5 0.30289 -1.01
3 450 1sqg (A) 5 428 16.00 0 0.95 1.02747 0.72
37 450 1sqg (A) 44 428 20.00 0 1 0.92273 1.09
246 407 3ajd (A) 87 233 34.00 0.0081 0.93 0.396512 1.02

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

No expression data available for this gene

Orthologs

Ortholog group members (OG5_128631)

Species Accession Gene Product
Arabidopsis thaliana AT5G26180   S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Brugia malayi Bm1_03615   Hypothetical 56.2 kDa protein in UME3-HDA1 intergenic region
Candida albicans CaO19.2604   similar to S. cerevisiae YNL022C
Candida albicans CaO19.10135   similar to S. cerevisiae YNL022C
Caenorhabditis elegans CELE_Y53F4B.4   Protein Y53F4B.4, isoform A
Cryptosporidium hominis Chro.70458   hypothetical protein
Cryptosporidium parvum cgd7_4130   Ynl022cp-like. SUN family methylase
Dictyostelium discoideum DDB_G0267872   NOL1/NOP2/Sun family protein
Drosophila melanogaster Dmel_CG42358   CG42358 gene product from transcript CG42358-RA
Echinococcus granulosus EgrG_000375700   methyltransferase nsun5
Entamoeba histolytica EHI_118860   methyltransferase, putative
Echinococcus multilocularis EmuJ_000375700   methyltransferase nsun5
Giardia lamblia GL50803_3985   tRNA/rRNA cytosine-C5-methylase
Homo sapiens ENSG00000130305   NOP2/Sun domain family, member 5
Leishmania braziliensis LbrM.28.1910   hypothetical protein, conserved
Leishmania donovani LdBPK_281860.1   NOL1/NOP2/sun family, putative
Leishmania infantum LinJ.28.1860   hypothetical protein, conserved
Leishmania major LmjF.28.1740   hypothetical protein, conserved
Leishmania mexicana LmxM.28.1740   hypothetical protein, conserved
Mus musculus ENSMUSG00000000916   NOL1/NOP2/Sun domain family, member 5
Oryza sativa 4328735   Os02g0217800
Saccharomyces cerevisiae YNL022C   Rcm1p
Schistosoma japonicum Sjp_0215360   Putative methyltransferase NSUN5, putative
Schistosoma japonicum Sjp_0084850   RNA, putative
Schistosoma japonicum Sjp_0308430   Conserved hypothetical protein
Schistosoma mansoni Smp_173710   williams-beuren syndrome critical region protein
Trypanosoma brucei gambiense Tbg972.11.10300   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.9210   NOL1/NOP2/sun family, putative
Trypanosoma congolense TcIL3000.11.9600   NOL1/NOP2/sun family, putative
Trypanosoma cruzi TcCLB.510901.140   NOL1/NOP2/sun family, putative

Essentiality

GL50803_3985 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0950 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.0950 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.0950 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.0950 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
YNL022C Saccharomyces cerevisiae inviable yeastgenome
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier GL50803_3985 (Giardia lamblia), tRNA/rRNA cytosine-C5-methylase
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